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bammerge - additional decompression threads? #62

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keiranmraine opened this issue Jan 25, 2018 · 0 comments

keiranmraine commented Jan 25, 2018

We have a process where previously we just used bammarkduplicates2 to merge and mark duplicates from many files (previously sorted and marked).

A change in our system will require us to run something like the following:

bammerge level=0 I=... | bammaskflags level=0 maskneg=512 | bamfilteraux level=0 remove=mm | bammarkduplicates2 ...

Is it possible to specify additional decompression threads for bammerge? Would they improve throughput?

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